Package: PoolTestR 0.2.0
PoolTestR: Prevalence and Regression for Pool-Tested (Group-Tested) Data
An easy-to-use tool for working with presence/absence tests on 'pooled' or 'grouped' samples. The primary application is for estimating prevalence of a marker in a population based on the results of tests on pooled specimens. This sampling method is often employed in surveillance of rare conditions in humans or animals (e.g. molecular xenomonitoring). The package was initially conceived as an R-based alternative to the molecular xenomonitoring software, 'PoolScreen' <https://sites.uab.edu/statgenetics/software/>. However, it goes further, allowing for estimates of prevalence to be adjusted for hierarchical sampling frames, and perform flexible mixed-effect regression analyses (McLure et al. Environmental Modelling and Software. <doi:10.1016/j.envsoft.2021.105158>). The package is currently in early stages, however more features are planned or in the works: e.g. adjustments for imperfect test specificity/sensitivity, functions for helping with optimal experimental design, and functions for spatial modelling.
Authors:
PoolTestR_0.2.0.tar.gz
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PoolTestR_0.2.0.tgz(r-4.4-x86_64)PoolTestR_0.2.0.tgz(r-4.4-arm64)PoolTestR_0.2.0.tgz(r-4.3-x86_64)PoolTestR_0.2.0.tgz(r-4.3-arm64)
PoolTestR_0.2.0.tar.gz(r-4.5-noble)PoolTestR_0.2.0.tar.gz(r-4.4-noble)
PoolTestR.pdf |PoolTestR.html✨
PoolTestR/json (API)
NEWS
# Install 'PoolTestR' in R: |
install.packages('PoolTestR', repos = c('https://angusmclure.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/angusmclure/pooltestr/issues
- ExampleData - A synthetic dataset for pooled testing
- SimpleExampleData - A synthetic dataset for pooled testing
- TruePrev - A synthetic dataset for pooled testing
Last updated 3 days agofrom:a5a814fd47. Checks:OK: 1 NOTE: 8. Indexed: yes.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Nov 18 2024 |
R-4.5-win-x86_64 | NOTE | Nov 18 2024 |
R-4.5-linux-x86_64 | NOTE | Nov 18 2024 |
R-4.4-win-x86_64 | NOTE | Nov 18 2024 |
R-4.4-mac-x86_64 | NOTE | Nov 18 2024 |
R-4.4-mac-aarch64 | NOTE | Nov 18 2024 |
R-4.3-win-x86_64 | NOTE | Nov 18 2024 |
R-4.3-mac-x86_64 | NOTE | Nov 18 2024 |
R-4.3-mac-aarch64 | NOTE | Nov 18 2024 |
Exports:getPrevalenceHierPoolPrevPoolLinkPoolPrevPoolRegPoolRegBayes
Dependencies:abindbackportsbayesplotBHbootbridgesamplingbrmsBrobdingnagcallrcheckmateclicodacodetoolscolorspacecrayondescdigestdistributionaldplyrfansifarverfuturefuture.applygenericsggplot2ggridgesglobalsgluegridExtragtablehmsinlineisobandlabelinglatticelifecyclelistenvlme4loomagrittrMASSMatrixmatrixStatsmgcvminqamunsellmvtnormnleqslvnlmenloptrnumDerivparallellypillarpkgbuildpkgconfigplyrposteriorprettyunitsprocessxprogresspsQuickJSRR6RColorBrewerRcppRcppEigenRcppParallelreshape2rlangrstanrstantoolsscalesStanHeadersstringistringrtensorAtibbletidyselectutf8vctrsviridisLitewithr